dnallm

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Author: Zhangtaolab
Summary: A comprehensive toolkit for fine-tuning and inference with DNA Language Models
Latest version: 1.2.1
Required dependencies: accelerate | addict | aiohttp | altair | bitsandbytes | captum | colorama | datasets | einops | evaluate | huggingface-hub | ipykernel | ipywidgets | jax | loguru | mambapy | mcp | modelscope | nbstripout | ninja | numba | numpy | openpyxl | optuna | oss2 | pandas | peft | pydantic | python-dotenv | pyyaml | rich | scikit-allel | scikit-learn | scipy | sentencepiece | seqeval | starlette | tensorboardx | tokenizers | torch | tqdm | transformers | umap-learn | uvicorn | wandb | websockets | wheel
Optional dependencies: causal-conv1d | click | coverage | dnallm | flash-linear-attention | gradio | ipython | isort | jupyter | langchain | langchain-mcp-adapters | langchain-ollama | logomaker | mamba-ssm | marimo | mcp | mkdocs-jupyter | mkdocs-material | mkdocstrings-python | mypy | nbclient | nest-asyncio | pandas-stubs | pre-commit | pybedtools | pydantic-ai | pyfastx | pygenometracks | pytest | pytest-asyncio | pytest-cov | pytest-progress | pytest-timeout | ruff | seaborn | torch | types-transformers

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